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Nathaniel Glassy 5 months ago
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commit
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35 changed files with 5274 additions and 0 deletions
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      Subject 31/sub-31_T1w.json
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+ 65 - 0
Subject 31/sub-31_T1w.json

@@ -0,0 +1,65 @@
+{
+	"Modality": "MR",
+	"MagneticFieldStrength": 3,
+	"ImagingFrequency": 123.254,
+	"Manufacturer": "Siemens",
+	"ManufacturersModelName": "TrioTim",
+	"InstitutionName": "Neuroscience Imaging Center",
+	"InstitutionAddress": "Irving St 1,-B73CEA- San Francisco,CA,US,94122",
+	"DeviceSerialNumber": "35229",
+	"StationName": "MRC35229",
+	"PatientPosition": "HFS",
+	"ProcedureStepDescription": "Nagarajan_Lab^temp",
+	"SoftwareVersions": "syngo MR B15",
+	"MRAcquisitionType": "3D",
+	"SeriesDescription": "t1_mprage",
+	"ProtocolName": "t1_mprage",
+	"ScanningSequence": "GR\\IR",
+	"SequenceVariant": "SP\\MP\\OSP",
+	"ScanOptions": "IR",
+	"SequenceName": "*tfl3d1_ns",
+	"ImageType": ["ORIGINAL", "PRIMARY", "M", "ND", "NORM"],
+	"SeriesNumber": 3,
+	"AcquisitionNumber": 1,
+	"SliceThickness": 1,
+	"SAR": 0.0827297,
+	"EchoTime": 0.00298,
+	"RepetitionTime": 2.3,
+	"InversionTime": 0.9,
+	"FlipAngle": 9,
+	"PartialFourier": 1,
+	"BaseResolution": 256,
+	"ShimSetting": [
+		7950,
+		-5675,
+		-2970,
+		222,
+		-111,
+		-156,
+		490,
+		-51	],
+	"TxRefAmp": 341.629,
+	"PhaseResolution": 0.96,
+	"ReceiveCoilName": "HeadMatrix",
+	"CoilString": "T:HEA;HEP",
+	"PulseSequenceDetails": "%SiemensSeq%\\tfl",
+	"RefLinesPE": 24,
+	"PercentPhaseFOV": 93.75,
+	"PercentSampling": 96,
+	"PhaseEncodingSteps": 230,
+	"AcquisitionMatrixPE": 230,
+	"ReconMatrixPE": 240,
+	"ParallelReductionFactorInPlane": 2,
+	"PixelBandwidth": 240,
+	"DwellTime": 8.2e-06,
+	"ImageOrientationPatientDICOM": [
+		-0.0087239,
+		0.999663,
+		0.0244322,
+		-0.000213228,
+		0.0244313,
+		-0.999701	],
+	"InPlanePhaseEncodingDirectionDICOM": "ROW",
+	"ConversionSoftware": "dcm2niix",
+	"ConversionSoftwareVersion": "v1.0.20210317"
+}

+ 1 - 0
Subject 31/sub-31_T1w.nii

@@ -0,0 +1 @@
+/annex/objects/MD5-s19661152--3b580badaad56e937651107b9ab49f71

BIN
Subject 31/sub-31_task-arrow_run-01.ds/BadChannels


+ 26 - 0
Subject 31/sub-31_task-arrow_run-01.ds/ClassFile.cls

@@ -0,0 +1,26 @@
+PATH OF DATASET:
+/data/research_meg2/leighton/lizraw/sub-31_task-arrow_run-01.ds
+
+
+NUMBER OF CLASSES:
+1
+
+
+CLASSGROUPID:
+3
+NAME:
+BAD
+COMMENT:
+
+COLOR:
+Red
+EDITABLE:
+Yes
+CLASSID:
+1
+NUMBER OF TRIALS:
+0
+LIST OF TRIALS:
+TRIAL NUMBER
+
+

File diff suppressed because it is too large
+ 1581 - 0
Subject 31/sub-31_task-arrow_run-01.ds/MarkerFile.mrk


BIN
Subject 31/sub-31_task-arrow_run-01.ds/bad.segments


+ 32 - 0
Subject 31/sub-31_task-arrow_run-01.ds/params.dsc

@@ -0,0 +1,32 @@
+
+// Head Localization parameters.
+// 26-May-2021 14:05
+
+CustomDs
+{
+	FixSensors:	False
+}
+
+// PROCESSING PARAMETERS
+processing
+{
+	// balance: order, adapted
+	// (adapted=0 -> not adapted)
+	// (adapted=1 -> adapted)
+	balance:	0,0
+}
+
+// Data selector parameters.
+DsSelector
+{
+	RejectBadTrials:	FALSE
+	ForceEvenNumTargets:	FALSE
+	MaximumOverlap:	0
+	StartTime:	-0
+	EndTime:	5
+	EventRange:	ALL
+	WholeTrial:	TRUE
+	CondSearchStart:	0
+	CondSearchEnd:	0
+	TargetTrialOffset:	0
+}

+ 33 - 0
Subject 31/sub-31_task-arrow_run-01.ds/processing.cfg

@@ -0,0 +1,33 @@
+// Processing configuration.
+// 14:05  26/05/2021
+
+// PROCESSING PARAMETERS
+processing
+{
+	// balance: order, adapted
+	// (adapted=0 -> not adapted)
+	// (adapted=1 -> adapted)
+	balance:	0,0
+	// lowpass: enable, filterOrder, fc
+	lowpass:	0,4,0.00000000000000000
+	// highpass: enable, filterOrder, fc
+	highpass:	0,4,0.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,4,0.00000000000000000,0.00000000000000000
+	// bandpass: enable, filterOrder, fc1, fc2
+	bandpass:	0,4,0.00000000000000000,0.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,2,0.00000000000000000,0.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,2,0.00000000000000000,0.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,2,0.00000000000000000,0.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,2,0.00000000000000000,0.00000000000000000
+	// offset: enable, baselineSelection, startPt, endPt
+	// (baseline=0 --> use pretrigger data)
+	// (baseline=1 --> use from startPt to endPt)
+	// (baseline=2 --> use whole trial)
+	// (baseline+=10 --> do trend removal)
+	offset:	0,0,1,1
+}

+ 37 - 0
Subject 31/sub-31_task-arrow_run-01.ds/sub-31_task-arrow_run-01.hc

@@ -0,0 +1,37 @@
+standard nasion coil position relative to dewar (cm):
+	x = 5.65685
+	y = 5.65685
+	z = -27
+standard left ear coil position relative to dewar (cm):
+	x = -5.65685
+	y = 5.65685
+	z = -27
+standard right ear coil position relative to dewar (cm):
+	x = 5.65685
+	y = -5.65685
+	z = -27
+measured nasion coil position relative to dewar (cm):
+	x = 6.14019
+	y = 6.53039
+	z = -26.7365
+measured left ear coil position relative to dewar (cm):
+	x = -5.25509
+	y = 4.86134
+	z = -26.9069
+measured right ear coil position relative to dewar (cm):
+	x = 5.40977
+	y = -5.0442
+	z = -27.1815
+measured nasion coil position relative to head (cm):
+	x = 8.98339
+	y = 2.22045e-16
+	z = 0
+measured left ear coil position relative to head (cm):
+	x = 0.0566435
+	y = 7.27876
+	z = -1.06581e-14
+measured right ear coil position relative to head (cm):
+	x = -0.0566435
+	y = -7.27876
+	z = 3.55271e-15
+

BIN
Subject 31/sub-31_task-arrow_run-01.ds/sub-31_task-arrow_run-01.infods


+ 1 - 0
Subject 31/sub-31_task-arrow_run-01.ds/sub-31_task-arrow_run-01.meg4

@@ -0,0 +1 @@
+/annex/objects/MD5-s1925160008--b1a9d19a299811ac571c1076d2c52f71

+ 17 - 0
Subject 31/sub-31_task-arrow_run-01.ds/sub-31_task-arrow_run-01.newds

@@ -0,0 +1,17 @@
+// 
+// These parameters will appear in the new dataset.
+// 
+NewDatasetFields
+{
+	site:	
+	system:	DSQ-2010
+	institute:	
+	protocol:	parkinsons.rp
+	purpose:	
+	keywords:	parkinson, Liz
+	coefsName:	/opt/ctf/hardware/M021/M021_2205.coef
+	sensName:	/opt/ctf/hardware/M021/M021_2205.sens
+	appName:	Acq patch3-4.17-linux-20040429
+	systemType:	cmeg
+	bandwidth:	0.000000, 300.000000
+}

BIN
Subject 31/sub-31_task-arrow_run-01.ds/sub-31_task-arrow_run-01.res4


BIN
Subject 31/sub-31_task-arrow_run-02.ds/BadChannels


+ 26 - 0
Subject 31/sub-31_task-arrow_run-02.ds/ClassFile.cls

@@ -0,0 +1,26 @@
+PATH OF DATASET:
+/data/research_meg2/leighton/lizraw/sub-31_task-arrow_run-02.ds
+
+
+NUMBER OF CLASSES:
+1
+
+
+CLASSGROUPID:
+3
+NAME:
+BAD
+COMMENT:
+
+COLOR:
+Red
+EDITABLE:
+Yes
+CLASSID:
+1
+NUMBER OF TRIALS:
+0
+LIST OF TRIALS:
+TRIAL NUMBER
+
+

File diff suppressed because it is too large
+ 1596 - 0
Subject 31/sub-31_task-arrow_run-02.ds/MarkerFile.mrk


BIN
Subject 31/sub-31_task-arrow_run-02.ds/bad.segments


+ 32 - 0
Subject 31/sub-31_task-arrow_run-02.ds/params.dsc

@@ -0,0 +1,32 @@
+
+// Head Localization parameters.
+// 26-May-2021 14:05
+
+CustomDs
+{
+	FixSensors:	False
+}
+
+// PROCESSING PARAMETERS
+processing
+{
+	// balance: order, adapted
+	// (adapted=0 -> not adapted)
+	// (adapted=1 -> adapted)
+	balance:	0,0
+}
+
+// Data selector parameters.
+DsSelector
+{
+	RejectBadTrials:	FALSE
+	ForceEvenNumTargets:	FALSE
+	MaximumOverlap:	0
+	StartTime:	-0
+	EndTime:	5
+	EventRange:	ALL
+	WholeTrial:	TRUE
+	CondSearchStart:	0
+	CondSearchEnd:	0
+	TargetTrialOffset:	0
+}

+ 33 - 0
Subject 31/sub-31_task-arrow_run-02.ds/processing.cfg

@@ -0,0 +1,33 @@
+// Processing configuration.
+// 14:05  26/05/2021
+
+// PROCESSING PARAMETERS
+processing
+{
+	// balance: order, adapted
+	// (adapted=0 -> not adapted)
+	// (adapted=1 -> adapted)
+	balance:	0,0
+	// lowpass: enable, filterOrder, fc
+	lowpass:	0,4,0.00000000000000000
+	// highpass: enable, filterOrder, fc
+	highpass:	0,4,0.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,4,0.00000000000000000,0.00000000000000000
+	// bandpass: enable, filterOrder, fc1, fc2
+	bandpass:	0,4,0.00000000000000000,0.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,2,0.00000000000000000,0.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,2,0.00000000000000000,0.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,2,0.00000000000000000,0.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,2,0.00000000000000000,0.00000000000000000
+	// offset: enable, baselineSelection, startPt, endPt
+	// (baseline=0 --> use pretrigger data)
+	// (baseline=1 --> use from startPt to endPt)
+	// (baseline=2 --> use whole trial)
+	// (baseline+=10 --> do trend removal)
+	offset:	0,0,1,1
+}

+ 37 - 0
Subject 31/sub-31_task-arrow_run-02.ds/sub-31_task-arrow_run-02.hc

@@ -0,0 +1,37 @@
+standard nasion coil position relative to dewar (cm):
+	x = 5.65685
+	y = 5.65685
+	z = -27
+standard left ear coil position relative to dewar (cm):
+	x = -5.65685
+	y = 5.65685
+	z = -27
+standard right ear coil position relative to dewar (cm):
+	x = 5.65685
+	y = -5.65685
+	z = -27
+measured nasion coil position relative to dewar (cm):
+	x = 5.92362
+	y = 6.58519
+	z = -26.9339
+measured left ear coil position relative to dewar (cm):
+	x = -5.47145
+	y = 4.78394
+	z = -26.9101
+measured right ear coil position relative to dewar (cm):
+	x = 5.33902
+	y = -5.08532
+	z = -27.2846
+measured nasion coil position relative to head (cm):
+	x = 9.01538
+	y = 1.11022e-16
+	z = 0
+measured left ear coil position relative to head (cm):
+	x = 0.0990753
+	y = 7.32068
+	z = 2.4869e-14
+measured right ear coil position relative to head (cm):
+	x = -0.0990753
+	y = -7.32068
+	z = -2.4869e-14
+

BIN
Subject 31/sub-31_task-arrow_run-02.ds/sub-31_task-arrow_run-02.infods


+ 1 - 0
Subject 31/sub-31_task-arrow_run-02.ds/sub-31_task-arrow_run-02.meg4

@@ -0,0 +1 @@
+/annex/objects/MD5-s1903200008--5e35b012973b8e9281d9704e50331c9c

+ 17 - 0
Subject 31/sub-31_task-arrow_run-02.ds/sub-31_task-arrow_run-02.newds

@@ -0,0 +1,17 @@
+// 
+// These parameters will appear in the new dataset.
+// 
+NewDatasetFields
+{
+	site:	
+	system:	DSQ-2010
+	institute:	
+	protocol:	parkinsons.rp
+	purpose:	
+	keywords:	parkinson, Liz
+	coefsName:	/opt/ctf/hardware/M021/M021_2205.coef
+	sensName:	/opt/ctf/hardware/M021/M021_2205.sens
+	appName:	Acq patch3-4.17-linux-20040429
+	systemType:	cmeg
+	bandwidth:	0.000000, 300.000000
+}

BIN
Subject 31/sub-31_task-arrow_run-02.ds/sub-31_task-arrow_run-02.res4


BIN
Subject 31/sub-31_task-arrow_run-03.ds/BadChannels


+ 26 - 0
Subject 31/sub-31_task-arrow_run-03.ds/ClassFile.cls

@@ -0,0 +1,26 @@
+PATH OF DATASET:
+/data/research_meg2/leighton/lizraw/sub-31_task-arrow_run-03.ds
+
+
+NUMBER OF CLASSES:
+1
+
+
+CLASSGROUPID:
+3
+NAME:
+BAD
+COMMENT:
+
+COLOR:
+Red
+EDITABLE:
+Yes
+CLASSID:
+1
+NUMBER OF TRIALS:
+0
+LIST OF TRIALS:
+TRIAL NUMBER
+
+

File diff suppressed because it is too large
+ 1593 - 0
Subject 31/sub-31_task-arrow_run-03.ds/MarkerFile.mrk


BIN
Subject 31/sub-31_task-arrow_run-03.ds/bad.segments


+ 32 - 0
Subject 31/sub-31_task-arrow_run-03.ds/params.dsc

@@ -0,0 +1,32 @@
+
+// Head Localization parameters.
+// 26-May-2021 14:10
+
+CustomDs
+{
+	FixSensors:	False
+}
+
+// PROCESSING PARAMETERS
+processing
+{
+	// balance: order, adapted
+	// (adapted=0 -> not adapted)
+	// (adapted=1 -> adapted)
+	balance:	0,0
+}
+
+// Data selector parameters.
+DsSelector
+{
+	RejectBadTrials:	FALSE
+	ForceEvenNumTargets:	FALSE
+	MaximumOverlap:	0
+	StartTime:	-0
+	EndTime:	5
+	EventRange:	ALL
+	WholeTrial:	TRUE
+	CondSearchStart:	0
+	CondSearchEnd:	0
+	TargetTrialOffset:	0
+}

+ 33 - 0
Subject 31/sub-31_task-arrow_run-03.ds/processing.cfg

@@ -0,0 +1,33 @@
+// Processing configuration.
+// 14:10  26/05/2021
+
+// PROCESSING PARAMETERS
+processing
+{
+	// balance: order, adapted
+	// (adapted=0 -> not adapted)
+	// (adapted=1 -> adapted)
+	balance:	0,0
+	// lowpass: enable, filterOrder, fc
+	lowpass:	0,4,0.00000000000000000
+	// highpass: enable, filterOrder, fc
+	highpass:	0,4,0.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,4,0.00000000000000000,0.00000000000000000
+	// bandpass: enable, filterOrder, fc1, fc2
+	bandpass:	0,4,0.00000000000000000,0.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,2,0.00000000000000000,0.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,2,0.00000000000000000,0.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,2,0.00000000000000000,0.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,2,0.00000000000000000,0.00000000000000000
+	// offset: enable, baselineSelection, startPt, endPt
+	// (baseline=0 --> use pretrigger data)
+	// (baseline=1 --> use from startPt to endPt)
+	// (baseline=2 --> use whole trial)
+	// (baseline+=10 --> do trend removal)
+	offset:	0,0,1,1
+}

+ 37 - 0
Subject 31/sub-31_task-arrow_run-03.ds/sub-31_task-arrow_run-03.hc

@@ -0,0 +1,37 @@
+standard nasion coil position relative to dewar (cm):
+	x = 5.65685
+	y = 5.65685
+	z = -27
+standard left ear coil position relative to dewar (cm):
+	x = -5.65685
+	y = 5.65685
+	z = -27
+standard right ear coil position relative to dewar (cm):
+	x = 5.65685
+	y = -5.65685
+	z = -27
+measured nasion coil position relative to dewar (cm):
+	x = 5.59299
+	y = 6.87838
+	z = -26.4691
+measured left ear coil position relative to dewar (cm):
+	x = -5.73179
+	y = 5.17855
+	z = -26.5278
+measured right ear coil position relative to dewar (cm):
+	x = 4.81299
+	y = -4.89046
+	z = -26.3026
+measured nasion coil position relative to head (cm):
+	x = 9.05459
+	y = 1.66533e-15
+	z = 0
+measured left ear coil position relative to head (cm):
+	x = 0.220835
+	y = 7.28754
+	z = -3.19744e-14
+measured right ear coil position relative to head (cm):
+	x = -0.220835
+	y = -7.28754
+	z = 2.84217e-14
+

BIN
Subject 31/sub-31_task-arrow_run-03.ds/sub-31_task-arrow_run-03.infods


+ 1 - 0
Subject 31/sub-31_task-arrow_run-03.ds/sub-31_task-arrow_run-03.meg4

@@ -0,0 +1 @@
+/annex/objects/MD5-s1903200008--b3ca03ccea5b24d804fca0ade95dab3c

+ 17 - 0
Subject 31/sub-31_task-arrow_run-03.ds/sub-31_task-arrow_run-03.newds

@@ -0,0 +1,17 @@
+// 
+// These parameters will appear in the new dataset.
+// 
+NewDatasetFields
+{
+	site:	
+	system:	DSQ-2010
+	institute:	
+	protocol:	parkinsons.rp
+	purpose:	
+	keywords:	parkinson, Liz
+	coefsName:	/opt/ctf/hardware/M021/M021_2205.coef
+	sensName:	/opt/ctf/hardware/M021/M021_2205.sens
+	appName:	Acq patch3-4.17-linux-20040429
+	systemType:	cmeg
+	bandwidth:	0.000000, 300.000000
+}

BIN
Subject 31/sub-31_task-arrow_run-03.ds/sub-31_task-arrow_run-03.res4